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Modular-integrative modeling: a new framework for building brain models that blend biological realism and functional performance

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National Science Review 2024年第05期 13-16页

作者： Mario Senden Sacha J.van Albada Giovanni Pezzulo Egidio Falotico Ibrahim Hashim Alexander Kroner Anno C.Kurth Pablo Lanillos Vaishnavi Narayanan Cyriel Pennartz Mihai A.Petrovici Lea Steffen Tonio Weidler Rainer Goebel Department of Cognitive Neuroscience Maastricht University maastricht brain imaging centre Maastricht University Institute of Neuroscience and Medicine(INM-6) and Institute for Advanced Simulation(IAS-6) and JARA-Institut brain Structure-Function Relationships(INM-10) Jülich Research Center Institute of Zoology University of Cologne Institute of Cognitive Sciences and Technologies The Bio Robotics Institute Scuola Superiore Sant'Anna RWTH Aachen University Donders Institute for brain Cognition and BehaviorRadboud University Cognitive and Systems Neuroscience Group Swammerdam Institute for Life Sciences University of Amsterdam Department of Physiology University of Bern FZI Research Center of Information Technology

To cope with the immense complexity of the brain, neuroscientific research often focuses on isolated brain structures or circumscribed perceptual, cognitive or motor functions [1]. This reductionist approach overlooks the intricate and multifaceted interplay among various structural and functional *** instance, even simple movements require the coordinated activation of numerous neuronal populations across multiple brain regions [2].

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Vascular endothelial growth factor:a double-edged sword in the development of white matter lesions

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Neural Regeneration Research 2025年第1期20卷 191-192页

作者： Narek Manukjan Daniel Fulton Zubair Ahmed WMatthijs Blankesteijn Sébastien Foulquier Department of Pharmacology and Toxicology Maastricht UniversityMaastrichtThe Netherlands CARIM-School for Cardiovascular Diseases Maastricht UniversityMaastrichtThe Netherlands Neuroscience and Ophthalmology Institute of Inflammation and AgeingUniversity of BirminghamEdgbastonBirminghamUK centre for Trauma Sciences Research University of BirminghamEdgbastonBirminghamUK MHeNs-School for Mental Health and Neuroscience Maastricht UniversityMaastrichtThe Netherlands Department of Neurology Maastricht University Medical CenterMaastrichtThe Netherlands

As the population ages,the burden of age-related diseases becomes ***,over 55 million people suffer from dementia worldwide,with Alzheimer’s disease being the most common ***,it is becoming clearer that underlying vascular pathology such as cerebral small vessel disease(cSVD)may be a more detrimental cause for dementia(Cuadrado-Godia et al.,2018).It is estimated that 10%-30%of the elderly population and 35%-90%of all dementia patients exhibit signs of *** term cSVD refers to pathology affecting the small vessels of the brain,which can lead to lacunar cerebral infarcts,enlarged perivascular spaces,and cortical hemorrhages(Cuadrado-Godia et al.,2018).CSVD is often associated with cognitive decline,gait problems,and dementia(Cuadrado-Godia et al.,2018).

关键词： pathology becoming white

Fundamental error in tree-based machine learning model selection for reservoir characterisation

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Energy Geoscience

Energy Geoscience 2024年第2期5卷 214-224页

作者： Daniel Asante Otchere centre of Excellence in Subsurface Seismic imaging and Hydrocarbon Prediction Universiti Teknologi PETRONAS32610Seri IskandarPerak Darul RidzuanMalaysia

Over the past two decades,machine learning techniques have been extensively used in predicting reservoir *** this approach has significantly contributed to the industry,selecting an appropriate model is still challenging for most *** solely on statistical metrics to select the best model for a particular problem may not always be the most effective *** study encourages researchers to incorporate data visualization in their analysis and model selection *** evaluate the suitability of different models in predicting horizontal permeability in the Volve field,wireline logs were used to train Extra-Trees,Ridge,Bagging,and XGBoost *** Random Forest feature selection technique was applied to select the relevant logs as inputs for the *** on statistical metrics,the Extra-Trees model achieved the highest test accuracy of 0.996,RMSE of 19.54 mD,and MAE of 3.18 mD,with XGBoost coming in ***,when the results were visualised,it was discovered that the XGBoost model was more suitable for the problem being *** XGBoost model was a better predictor within the sandstone interval,while the Extra-Trees model was more appropriate in non-sandstone *** this study aims to predict permeability in the reservoir interval,the XGBoost model is the most *** contrasting results demonstrate the importance of incorporating data visualisation techniques as an evaluation *** the heterogeneity of the subsurface,relying solely on statistical metrics may not be sufficient to determine which model is best suited for a particular problem.

关键词： Data visualisation Permeability Machine learning Statistical metrics

4-Nitrocatechol as a novel matrix for low-molecular-weight compounds in situ detection and imaging in biological tissues by MALDI-MSI

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Chinese Chemical Letters 2024年第6期35卷 486-490页

作者： Hualei Xu Manman Han Haiqiang Liu Liang Qin Lulu Chen Hao Hu Ran Wu Chenyu Yang Hua Guo Jinrong Li Jinxiang Fu Qichen Hao Yijun Zhou Jinchao Feng Xiaodong Wang Key Laboratory of Mass Spectrometry imaging and Metabolomics(Minzu University of China) State Ethnic Affairs CommissionBeijing 100081China College of Life and Environmental Sciences Centre for Imaging&Systems BiologyMinzu University of ChinaBeijing 100081China

Low-molecular-weight(LMW)compounds are ubiquitous in living organisms and play essential roles in biological *** direct analysis of LMW compounds in biological tissues by matrix-assisted laser desorption/ionization mass spectrometry imaging(MALDI-MSI)could provide a more comprehensive understanding of their essential ***,we evaluated 4-nitrocatechol(4-NC)as a novel positive-ion matrix for enhancing in situ detection and imaging of LMW compounds from the rat liver,brain,and germinating Chinese-yew seed by *** results showed that the 4-NC possessed remarkable features,including strong ultraviolet absorption,uniform matrix crystal,excellent chemical stability,and fewer matrix-related background *** use of 4-NC led to the successful detection of 232,218,and193 LMW compounds from the three abovementioned tissue sections,***,the use of 4-NC improved the imaging quality of LMW compounds in tissue sections through MALDI-MSI and has the potential as a matrix for MALDI tissue imaging of LMW compounds.

关键词： MALDI-MSI 4-Nitrocatechol LMW compounds In situ detection Tissue imaging

Neuroinflammation as a therapeutic target in Huntington's disease

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Neural Regeneration Research 2025年第3期20卷 817-818页

作者： Andrea Kwakowsky Thulani H.Palpagama Center for brain Research and Department of Anatomy and Medical imaging Faculty of Medical and Health SciencesUniversity of AucklandAucklandNew Zealand Pharmacology and Therapeutics School of MedicineGalway Neuroscience CentreUniversity of GalwayGalwayIreland

In 1872, George Huntington presented his essay “On Chorea” to the Meigs and Mason Academy of Medicine and, in doing so, detailed a disease that would later bear his name. Huntington's disease(HD) is a genetic, neurodegenerative disease that manifests as the loss of motor control,cognitive impairment,and mood and psychiatric changes in paents.

关键词： Huntington inflammation Medicine

The CCD instrument background of the SMILE SXI

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Earth and Planetary Physics 2024年第1期8卷 15-24页

作者： M.W.J.Hubbard O.Hetherington D.J.Hall T.W.Buggey S.Parsons T.Arnold A.Holland C.Pagani S.Sembay centre for Electronic imaging The Open UniversityMilton KeynesMK76AAUK X-ray and Observational Astronomy Group Department of Physics&AstronomyUniversity of LeicesterLE17RHUK

The ESA and CAS SMILE mission orbit is highly elliptical and will pass through multiple radiation *** Soft X-ray Imager(SXI)instrument aboard has a radiation shutter door designed to close when the surrounding radiation flux is *** shutter door will close when passing below an altitude threshold to protect against trapped particles in the Earth’s Van Allen ***,two radiation environments can be approximated based on the shutter door position:open and *** instrument background for the CCDs(Charge-Coupled Devices)that form the focal plane array of the SXI were evaluated for the two *** to the correlation of the space environment with the solar cycle,the solar minima and maxima,the background was also evaluated at these two *** results demonstrated that the highest instrument background will occur during solar minima due to the main contributing source being Galactic Cosmic Rays(GCRs).It was also found that the open background was highest for solar minima and that the closed background was highest during solar *** is due to the radiation shutter door acting as a scattering centre and the changes in the energy flux distribution of the GCRs between the two solar extremes.

关键词： instrument background X-ray astronomy space radiation

The interplay of drug therapeutics and immune responses to SARS-CoV-2

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Cellular & Molecular Immunology 2024年第2期21卷 197-200页

作者： Valeria Fumagalli Matteo Iannacone Division of Immunology Transplantationand Infectious DiseasesIRCCS San Raffaele Scientific InstituteMilanItaly Vita-Salute San Raffaele University MilanItaly Experimental imaging centre IRCCS San Raffaele Scientific InstituteMilanItaly

The SARS-CoV-2 pandemic has necessitated rapid therapeutic and preventative *** vaccines form the frontline of defense,antiviral treatments such as nirmatrelvir have emerged as vital adjunctive measures,particularly for those unable or unwilling to be *** review delves into the potential influence of nirmatrelvir on enduring *** parallel,the potential of drug repurposing is explored,with bisphosphonates being examined for their possible effects against COVID-19 due to their immunomodulatory *** importance of rigorous clinical trials and careful interpretation of preliminary data is emphasized.

关键词： SARS-CoV-2 Nirmatrelvir Bisphosphonates Adaptive immunity Drug repurposing

Preface–Introduction to the Special Issue for Chinese-Russian Workshop on Biophotonics and Biomedical Optics

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Journal of Innovative Optical Health Sciences 2024年第5期17卷 1-3页

作者： Tingting Yu Dan Zhu Valery V.Tuchin Britton Chance Center for Biomedical Photonics-MoE Key Laboratory for Biomedical Photonics Advanced Biomedical Imaging FacilityWuhan National Laboratory for Optoelectronics–Advanced Biomedical Imaging FacilityHuazhong University of Science and TechnologyWuhan 430074China Department of Optics and Biophotonics Science Medical CenterSaratov State UniversitySaratov 410012Russia Laboratory of Laser Diagnostics of Technical and Living Systems Institute of Precision Mechanics and ControlFRC“Saratov Scientic Centre of the Russian Academy of Sciences”Saratov 410028Russia Laboratory of Laser Molecular imaging and Machine Learning Tomsk State UniversityTomsk 634050Russia

The Chinese-Russian Workshop on Biophotonics and Biomedical Optics 2023 was held online twice on 18–21 September and 25–26 September *** bilateral workshop brought together both Russian and Chinese scientists,engineers,and clinical researchers from a variety of disciplines engaged in applying optical science,photonics,and imaging technologies to problems in biology and *** the workshops,two plenary lectures and twenty invited presentations were *** special issue selects some papers from both Russian and Chinese sides,consisting of one review and seven original research articles.

关键词： Russian photonics Biomedical

Building Expertise on FAIR Through Evolving Bring Your Own Data(BYOD) Workshops: Describing the Data, Software, and Management-focused Approaches and Their Evolution

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Data Intelligence 2024年第2期6卷 429-456页

作者： César H.Bernabé Lieze Thielemans Rajaram Kaliyaperumal Claudio Carta Shuxin Zhang Celia W.G.van Gelder Nirupama Benis Luiz Olavo Bonino da Silva Santos Ronald Cornet Bruna dos Santos Vieira Nawel Lalout Ines Henriques Alberto Camara Ballesteros Kees Burger Martijn G.Kersloot Friederike Ehrhart Esther van Enckevort Chris T.Evelo Alasdair J.G.Gray Marc Hanauer Kristina Hettne Joep de Ligt Arnaldo Pereira Nuria Queralt-Rosinach Erik Schultes Domenica Taruscio Andra Waagmeester Mark D.Wilkinson Egon L.Willighagen Mascha Jansen Barend Mons Marco Roos Annika Jacobsen Biosemantics Group Department of Human GeneticsLeiden University Medical CentreLeidenThe Netherlands NIHR Academic Fellow in General Practice University College London and The Royal Free NHS Foundation Trust National centre for Rare Diseases Istituto Superiore di SanitaRomeItaly Department of Medical Informatics Amsterdam UMC location University of AmsterdamMeibergdreef 9AmsterdamThe Netherlands Amsterdam Public Health Methodology&Digital HealthAmsterdamThe Netherlands Health-Rl UtrechtThe Netherlands Semantics Services and Cybersecurity groupUniversity of TwenteEnschedeThe Netherlands Department of Medical imaging Radboud Institute for Health SciencesRadboud University Medical CenterNijmegenThe Netherlands Department of Medical BioSciences Radboud University Medical CenterNijmegenThe Netherlands The Duchenne Parent Project VeneendaalThe Netherlands Departamento de Biotecnologia-Biologia Vegetal Escuela Tecnica Superior de Ingenieria AgronomicaAlimentaria y de BiosistemasCentro de Biotecnologia y Genomica de PlantasUniversidad Politecnica de Madrid(UPM)-Instituto Nacional de Investigacion y Tecnologia Agraria y Alimentaria-CSIC(INIA-CSIC).Campus MontegancedoPozuelo de Alarcon(Madrid)Spain Castor AmsterdamThe Netherlands Department of Bioinformatics-BiGCaT Maastricht UniversityMaastrichtThe Netherlands University Medical Center Groningen University of GroningenGroningenThe Netherlands maastricht centre for Systems Biology(MaCSBio) Maastricht UniversityMaastrichtThe Netherlands Department of Computer Science Heriot-Watt UniversityEdinburghUK INSERM US14-OrphanetPlateforme Maladies RaresParisFrance centre for Digital Scholarship Leiden University LibrariesThe Netherlands Center for Molecular Medicine Cancer Genomics NetherlandsDepartment of GeneticsUniversity Medical Center UtrechtUniversity UtrechtThe Netherlands University of Aveiro DETI/IEETAAveiroPortugal GO FAIR Foundation LeidenThe Netherlands The Leiden Academic Center for Drug Research LeidenThe Netherlands Micel

Since 2014,"Bring Your Own Data"workshops(BYODs)have been organised to inform people about the process and benefits of making resources Findable,Accessible,Interoperable,and Reusable(FAIR,and the FAIRification process).The BYOD workshops'content and format differ depending on their goal,context,and the background and needs of ***-focused BYODs educate domain experts on how to make their data FAIR to find new answers to research ***-focused BYODs promote the benefits of making data FAIR and instruct project managers and policy-makers on the characteristics of FAIRification ***-focused BYODs gather software developers and experts on FAIR to implement or improve software resources that are used to support ***,these BYODs intend to foster collaboration between different types of stakeholders involved in data management,curation,and reuse(*** experts,trainers,developers,data owners,data analysts,FAIR experts).The BYODs also serve as an opportunity to learn what kind of support for FAIRification is needed from different communities and to develop teaching materials based on practical examples and *** this paper,we detail the three different structures of the BYODs and describe examples of early BYODs related to plant breeding data,and rare disease registries and biobanks,which have shaped the structure of the *** discuss the latest insights into making BYODs more productive by leveraging our almost ten years of training experience in these workshops,including successes and encountered ***,we examine how the participants'feedback has motivated the research on FAIR,including the development of workflows and software.

关键词： FAIR FAIRification FAIR expertise Bring Your Own Data Workshop BYOD